genome.fa.s193.2.7.7.80.10.50.1000.9.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold193
Parameters: 2 7 7 80 10 50 1000
Length:  3104049

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2130 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545607--1545672	24	2.7	25	77	9	64	37	0	0	62	0.96
1546207--1546237	3	10.3	3	92	0	53	0	29	0	70	0.87
1547170--1547241	29	2.5	28	76	17	76	61	0	0	38	0.96
1547164--1547249	13	6.4	13	71	12	50	56	0	0	43	0.99
1547404--1547486	34	2.5	33	86	3	112	26	2	25	45	1.65
1551893--1552113	34	6.5	33	85	4	280	24	8	26	40	1.83
1551893--1552111	102	2.2	101	89	1	339	25	8	26	40	1.83
1554571--1554614	3	14.7	3	100	0	88	31	0	0	68	0.90
1556982--1557056	20	3.8	20	78	0	87	34	13	12	40	1.81
1556982--1557059	40	2.0	39	87	2	111	34	12	12	39	1.82
1571051--1571086	14	2.8	12	84	15	54	88	11	0	0	0.50
1571055--1571104	14	3.5	14	82	17	59	86	8	4	2	0.78
1571051--1571104	9	5.9	9	79	16	58	85	9	3	1	0.80
1571052--1571109	19	3.1	19	85	5	64	84	6	5	3	0.86
1572319--1573482	28	40.8	28	87	2	1468	27	31	18	22	1.97
1574109--1574185	20	3.9	19	74	6	73	35	11	11	41	1.78
1574109--1574186	40	2.0	39	84	2	102	34	11	12	41	1.80
1580542--1580570	14	2.0	15	93	6	51	82	0	0	17	0.66
1581167--1581228	8	6.3	10	70	22	51	69	0	29	1	0.98
1581167--1581228	15	4.2	14	79	6	61	69	0	29	1	0.98
1581167--1581221	19	2.9	19	81	10	60	69	0	29	1	0.99
1585102--1585454	190	1.9	189	87	4	523	35	20	9	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1588747--1588897	58	2.6	57	76	10	137	51	11	7	29	1.65
1588919--1589031	58	1.9	58	82	7	140	49	15	10	23	1.76
1589136--1589228	29	3.2	28	70	25	70	44	11	10	33	1.76
1592936--1592964	14	2.1	14	100	0	58	31	0	0	68	0.89
1609049--1609207	28	5.8	28	73	7	146	48	2	6	42	1.42
1609047--1609208	57	3.0	54	83	4	184	48	2	6	42	1.41
1609051--1609207	54	2.9	53	83	7	190	48	2	6	42	1.42
1610833--1610903	27	2.6	27	86	4	99	30	7	12	49	1.67
1615393--1615459	27	2.5	27	87	4	100	28	5	20	44	1.75
1619990--1620443	161	2.8	160	90	4	698	40	11	11	36	1.77
1621239--1621277	2	19.5	2	100	0	78	51	0	0	48	1.00
1622065--1623053	162	6.1	161	78	9	906	53	7	10	28	1.63
1622053--1623123	484	2.2	486	81	7	1208	52	7	10	29	1.63
1622058--1623160	162	6.8	160	77	10	814	52	7	10	29	1.64
1624905--1624979	20	3.8	20	78	0	87	34	13	12	40	1.81
1624905--1624982	40	2.0	39	87	2	111	34	12	12	39	1.82
1625877--1625934	23	2.7	23	92	7	95	17	8	8	65	1.45
1633870--1633894	13	1.9	13	100	0	50	16	8	16	60	1.58
1636265--1636297	17	1.9	17	93	0	57	39	0	0	60	0.97
1636649--1636738	45	2.0	45	93	0	153	34	10	16	38	1.82
1637042--1637079	17	2.2	18	85	4	51	36	5	5	52	1.47
1637782--1637829	24	1.9	26	83	8	64	45	4	6	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638644--1638694	12	3.9	12	78	16	57	39	11	5	43	1.66
1638697--1638734	12	3.2	12	92	0	67	23	23	34	18	1.96
1643409--1643459	12	3.9	12	78	16	57	39	11	5	43	1.66
1643456--1643499	12	3.7	12	84	0	61	27	22	29	20	1.99
1643544--1643575	16	2.0	16	93	0	55	21	37	28	12	1.90
1644519--1644569	23	2.5	20	81	15	59	47	0	3	49	1.20
1646181--1646225	2	22.5	2	100	0	90	51	0	0	48	1.00
1651697--1651722	2	13.0	2	100	0	52	50	0	0	50	1.00
1652153--1652198	24	1.9	24	90	0	74	39	23	10	26	1.88
1657553--1657614	24	2.7	22	70	22	56	59	0	0	40	0.97
1657970--1658137	13	12.7	14	65	18	76	55	0	0	43	1.04
1657981--1658034	16	3.3	16	86	2	72	61	0	0	38	0.96
1657981--1658140	29	5.6	27	70	23	98	56	0	0	43	1.04
1657981--1658165	27	7.1	27	74	19	119	55	0	0	43	1.03
1658048--1658165	27	4.2	28	79	15	129	55	0	0	44	0.99
1658527--1658569	21	2.1	20	91	4	68	69	0	0	30	0.88
1658536--1658574	9	4.3	10	78	21	50	71	0	0	28	0.86
1658539--1658576	17	2.2	18	90	4	60	71	0	0	28	0.87
1659405--1659438	18	1.9	17	88	5	50	44	5	2	47	1.42
1659416--1659468	28	1.9	29	85	11	76	54	1	0	43	1.11
1663779--1663809	11	2.8	11	100	0	62	22	0	0	77	0.77
1663803--1663831	15	1.9	15	100	0	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1664580--1664608	2	14.5	2	100	0	58	51	0	48	0	1.00
1665492--1665695	66	3.1	65	82	4	248	33	14	21	30	1.93
1665561--1665660	33	3.0	33	71	16	89	34	14	22	30	1.93
1665939--1665971	16	2.0	17	88	5	50	18	15	15	51	1.77
1669813--1669838	10	2.6	10	100	0	52	34	0	7	57	1.27
1670106--1670198	46	2.0	46	100	0	186	33	21	19	25	1.97
1670882--1670923	22	1.9	22	100	0	84	40	21	14	23	1.90
1672603--1672634	16	2.0	16	93	0	55	53	6	0	40	1.26
1672813--1673025	104	2.0	105	92	0	356	43	5	6	45	1.51
1673421--1673451	15	2.1	15	93	0	53	54	0	0	45	0.99
1673829--1673869	2	20.5	2	100	0	82	48	0	0	51	1.00
1674351--1674391	12	3.4	13	83	16	61	68	0	0	31	0.90
1674362--1674401	17	2.4	16	80	8	53	62	0	0	37	0.95
1674826--1674874	15	3.4	14	81	10	53	42	4	2	51	1.32
1677037--1677077	2	20.5	2	100	0	82	51	0	0	48	1.00
1677374--1677403	15	2.0	15	93	0	51	30	0	0	70	0.88
1677382--1677411	16	1.9	16	93	6	53	23	0	0	76	0.78
1680412--1680467	18	3.1	18	80	16	62	8	14	0	76	1.00
1680431--1680461	13	2.3	14	94	5	55	12	9	0	77	0.99
1680453--1680520	14	4.9	14	87	10	79	11	4	0	83	0.78
1680469--1680520	7	7.4	7	95	0	95	15	0	0	84	0.62
1680450--1680520	21	3.3	21	86	9	83	12	4	0	83	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1686187--1686285	28	3.6	27	81	10	112	25	19	31	24	1.98
1686269--1686491	105	2.1	103	81	4	243	34	12	23	29	1.91
1686269--1686491	52	4.3	51	78	5	223	34	12	23	29	1.91
1686533--1686660	51	2.4	50	82	10	148	29	11	23	35	1.90
1687277--1687301	10	2.5	10	100	0	50	76	8	0	16	1.02
1689006--1689068	33	1.9	33	86	0	90	44	17	12	25	1.84
1689088--1689154	19	3.8	19	75	22	83	37	13	11	37	1.82
1689091--1689151	32	1.9	32	96	0	113	36	13	13	37	1.83
1691399--1691431	16	2.1	16	94	0	57	30	3	6	60	1.36
1691451--1691483	2	16.5	2	100	0	66	48	0	0	51	1.00
1691720--1691749	11	2.7	11	94	0	51	33	10	0	56	1.32
1696445--1696519	38	2.0	38	97	0	141	42	13	12	32	1.80
1700795--1700823	14	2.1	14	100	0	58	44	27	13	13	1.82
1704447--1704517	36	2.0	36	94	0	124	23	19	21	35	1.96
1704652--1704691	2	20.0	2	86	0	53	52	5	0	42	1.23
1704789--1704834	23	2.0	23	100	0	92	39	8	8	43	1.66
1707471--1707496	6	4.3	6	100	0	52	34	0	0	65	0.93
1707559--1707597	17	2.2	18	90	4	62	64	0	0	35	0.94
1708172--1708197	13	2.0	13	100	0	52	38	7	0	53	1.30
1709648--1709677	15	1.9	16	93	6	53	50	0	0	50	1.00
1710611--1710649	20	2.0	20	94	0	69	25	2	0	71	0.98
1711744--1711815	28	2.6	29	74	12	71	51	1	0	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1711757--1711807	24	2.0	25	85	7	68	49	0	0	50	1.00
1714552--1714621	16	4.5	17	75	22	66	42	1	0	55	1.08
1714569--1714605	17	2.1	18	90	5	58	37	2	0	59	1.12
1720241--1720271	7	4.4	7	91	0	53	0	9	0	90	0.46
1722111--1722143	9	3.7	9	95	0	57	3	33	18	45	1.65
1722202--1722253	27	2.0	26	96	3	95	44	11	3	40	1.59
1722205--1722254	12	3.9	13	76	19	52	44	10	6	40	1.63
1726890--1726922	9	3.7	9	95	0	57	3	33	18	45	1.65
1726981--1727032	27	2.0	26	96	3	95	44	11	3	40	1.59
1726984--1727033	12	3.9	13	76	19	52	44	10	6	40	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18